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Bioinformatics education at the Université de Montréal
Bioinformatics education at the Université de Montréal
www.bioinfo.umontreal.ca
Formation en bio-informatique
à l’ Université de Montréal
Bioinformatics education at the Université de Montréal
Outline
Bioinformatics Definition Activities at UdeM Shortage of skilled personnel Training programs at UdeM Fellowships at UdeM
Bioinformatics education at the Université de Montréal
Bioinformatics - definition
Data acquisition Data storage & retrieval Data analysis Development of tools Design of algorithms & methods
Bioinformatics education at the Université de Montréal
Bioinformatics activities at UdeM
History - Founders Robert Cedergren (Biochemistry) & David Sankoff (Mathematics, Computer Science): seminal paper on 5.8S rRNA (1976) in Nature
10 major research groups in departments Biochemistry, Biology, Computer Science, Pediatry, Physics
Collaborations within Quebec, Canada and world-wide
Bioinformatics education at the Université de Montréal
Bioinformatics activities at UdeM
Research areas Comparative genome analysis Phylogenetic inference Structure modeling & prediction Databases Modeling of molecular evolution Algorithms & computational
methods
Bioinformatics education at the Université de Montréal
Bioinformatics activities at UdeM
Some research groups and expertiseS.Chteinberg: RNA 2-D structure prediction;
RNA-RNA interactionsG.Burger: Comparative genome analysis &
software development; integrated databasesN.El-Mabrouk: Algorithmics of genome
rearrangements; structure predictionS.Hamel: Algorithmics of trees and 2-D structuresBF.Lang: Integrated databases; structure/function
of sequence motifsF.Major: RNA 3-D structure modelingS.Mischnick: Protein-protein interactionN.Mousseau: Algorithmics of protein foldingH.Philippe: Modeling of molecular evolution and
tree robustness
Bioinformatics education at the Université de Montréal
Shortage of skilled bioinformaticians
SectorAcademic, private and public (R&D) sectorsSkills Data production process control Database design, implementation, curation Data analysis pipelines using existing tools Development of tools Design of algorithms & methodsSought educationBSc<MSc≤PhD
“Biologists are confronted by a tidal wave of information. Unfortunately, few of them know how to swim.”
- Economist Magazine, 26 June, 1999
Bioinformatics education at the Université de Montréal
Bioinformatics training programs at UdeM
ConceptionDepartments of Biochemistry & Computer ScienceAimsSolid training in both Computer & Life SciencesCritical thinkingInitiative, creativityTeam player
Bioinformatics education at the Université de Montréal
Bioinformatics training programs at UdeM
Notable features Trans-disciplinary courses Theoretical and hands-on training Problem-driven learning Scientific communication Autonomous research
Bioinformatics education at the Université de Montréal
Bioinformatics training at UdeM
Academic degree programsBachelor program (3 y)Master’s program (2 y)PhD program (3-4 y)
Post-doctoral training
Bioinformatics education at the Université de Montréal
Bioinformatics training at UdeM
Number of students (Fall 2003) Bachelor program: 49 Master’s program: 23 PhD program: 9 Post-docs: 12
Bioinformatics education at the Université de Montréal
Bioinformatics B.Sc. program at UdeM
Common Block Biology, biochemistry, chemistry,computer science, mathematics,
bioinformatics, ethics
Option Life ScienceStructural biology, ecology,
neuroscience..
Option Computer ScienceMathematics, simulation, engineering, db systems..
Other DisciplinesLaw, management, sociology..
Autonomous Research3-month internship
Bioinformatics education at the Université de Montréal
Bioinformatics B.Sc. program at UdeM
Conditions of admissionCollege Mathematics,
Physics, Chemistry, Biology, or equivalent
Basic French language
Places
30 per year
Bioinformatics education at the Université de Montréal
Bioinformatics M.Sc. program at UdeMPreparative Studies
Individualized plan
Common BlockAlgorithmics & applications in
bioinformatics
SpecializationBioinformatics, computer & life
science; mathematics
Research WorkshopsScientific approaches,
communication
Internships2 x 6-month in public or
private sector
Autonomous ResearchAcademic project
& thesis
DurationPreparative courses
0-2 trimesterRegular courses
2 trimesterResearch/internship
~1 year
Bioinformatics education at the Université de Montréal
Bioinformatics M.Sc. program at UdeM
Conditions of admission B.Sc. in either
Computer Science Life Sciences Mathematics or similar
Supervisor Basic French language
Number of places~30
Bioinformatics education at the Université de Montréal
Bioinformatics Ph.D. program at UdeM
Preparative Studies Individualized plan
Research Workshops,Conferences
Autonomous Research
Academic project & thesis
DurationPreparative courses
0-1 trimesterRegular courses
Concomitant (6 credits)Research~2-4 years
Bioinformatics education at the Université de Montréal
Bioinformatics Ph.D. program at UdeM
Conditions of admission M.Sc. in
Bioinformatics, or Equivalent bi-disciplinary training
Supervisor
Number of places~30
Bioinformatics education at the Université de Montréal
Bioinformatics fellowships at UdeM
biT – program of excellence Funded by CIHR $1,8 Mio over 6 years Full financing of
Master’s & PhD studies Post-doctoral training Including preparative studies
Eligibility & Selection criteria Enrolled at UdeM Excellence in academic
and/or professional performance
Bioinformatics education at the Université de Montréal
Bioinformatics ‘mobility’ programs
Study exchange programs with most French universitiesAcademic internship exchange programs esp. with Université de Poitiers & d’AurillacPrivate sector internship agreementsCo-supervision of graduate students with researchers outside UdeM
Bioinformatics education at the Université de Montréal
Programmes d’ étude en bio-informatique à l’ Université de Montréal
Responsable: Gertraud Burger
www.bioinfo.umontreal.ca